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Crystal structure of UFC1 Y110A & F121A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z6P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.1M HEPES pH 7.5, 2M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.01 38.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.161 α = 90 b = 46.161 β = 90 c = 143.755 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 PIXEL DECTRIS PILATUS 200K 2021-02-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.2 33.24 99.8 0.153 0.99 13.33 1.2 8491 25.44
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.279 99.14 0.71 0.47 2.7 1.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2Z6P 2.2 33.24 8491 444 99.824 0.196 0.1928 0.246 0.2005 Random selection 26.854
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.088 0.088 -0.175
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.469 r_dihedral_angle_3_deg 15.763 r_dihedral_angle_4_deg 11.327 r_lrange_it 7.385 r_lrange_other 7.382 r_dihedral_angle_1_deg 6.44 r_scangle_it 4.126 r_scangle_other 4.124 r_mcangle_it 3.538 r_mcangle_other 3.536
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.469 r_dihedral_angle_3_deg 15.763 r_dihedral_angle_4_deg 11.327 r_lrange_it 7.385 r_lrange_other 7.382 r_dihedral_angle_1_deg 6.44 r_scangle_it 4.126 r_scangle_other 4.124 r_mcangle_it 3.538 r_mcangle_other 3.536 r_scbond_it 2.648 r_scbond_other 2.646 r_mcbond_it 2.239 r_mcbond_other 2.238 r_angle_refined_deg 1.468 r_angle_other_deg 1.258 r_symmetry_nbd_refined 0.25 r_nbd_refined 0.221 r_xyhbond_nbd_refined 0.219 r_symmetry_xyhbond_nbd_refined 0.213 r_symmetry_nbd_other 0.191 r_nbd_other 0.175 r_nbtor_refined 0.169 r_symmetry_nbtor_other 0.078 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1316 Nucleic Acid Atoms Solvent Atoms 47 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling PHASER phasing